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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

ATGGGGAAAGATGTTGTATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggcttctgaattccctgtccattatgatgagtaaaatttagtttgtttatgactttagatctcttcaaaatgcag

Basic information

species Vitis vinifera
transcript Vv14s0171g00330.t01
intron # 7
splice site 5'
intron type U2

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: LOC_Os05g23620.1 (Oryza sativa), 5'ss of exon 8
ATGGGGAAAGATGTTGTATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggcttctgaattccctgtccattatgatgagtaaaatttagtttgtttatgactttagatctcttcaaa----atgcag
||||| || ||||| || || || ||| |||||||||| ||||| ||||||||||| ||||||||||||||   |||      ||  |  |  || ||  |   |  ||||     | |||   | |    | ||  || ||    ||| ||
ATGGGCAAGGATGTCGTTTCGTTCTTGTCATGGGCAGCTGAACCTGAGATGGAAGAGAGGAAACTGgtaatc-agctcaacttttgtccatttat-atattactttcaattcgcaatatttcctaataccaacctactctaatttgatgtag

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: LOC_Os01g70960.1 (Oryza sativa), 5'ss of exon 7
ATGGGGAAAGATGTTGTATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggcttctgaattccctgtccattatgatgagtaaaatttagtttgtttatgactttagatctcttcaaaatgcag---------
||||| ||||||||||| || || ||| ||||||| ||||| || ||||||||||| || ||||||||||     |||   |  |||||||  | |    ||      ||||    |||| ||    |   || |||||| | || |          
ATGGGAAAAGATGTTGTCTCGTTCTTGTCATGGGCGGCGGAGCCTGAGATGGAAGAGAGAAAACTGgtaaccct-cttggaacctccctgtagaat----tgtcctctatttctactgttaattgtct--aatttcttcatactggaattgtgctag

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA19G22530.2 (Glycine max), 5'ss of exon 7
ATGGGGAAAGATGTTGTATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggcttctgaattccctgtccattatgatgagtaaaatttagtttgtttatgactttag---atctcttcaaaatgcag
||||| |||||| ||||||||||  |||| ||||| |||||||| ||||||||||| || ||||||||   ||  |||    || |  | ||||  | ||| | ||||    |  || |||||    | ||   ||  || | | ||||||
ATGGGTAAAGATATTGTATCATTCCTGACTTGGGCTGCGGAACCTGAGATGGAAGAGAGAAAACTGgtttgtttcctttattatcctttttccacca-gatcaataaag---aaattctttattttctaaggacattgctaccatatgcag

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA05G07020.1 (Glycine max), 5'ss of exon 7
ATGGGGAAAGATGTTGTATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggcttctgaattccctgtccattatgatgagtaa--aatttagtttgtttatgactttagatctcttcaaaatgcag
||||| |||||  ||||||||||  |||| ||||| |||||||| ||||||||||| || ||||||||   ||  |||    || |  | ||||  | ||| | |||  ||  || ||| |||   |    | ||  || | | ||||||
ATGGGTAAAGACATTGTATCATTCCTGACTTGGGCTGCGGAACCTGAGATGGAAGAGAGAAAACTGgtttgtttcctttattatcctttttccacca-gatcaataaagaaaatactttattttctaagg-acattgctgccatatgcag

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: GLYMA16G06700.2 (Glycine max), 5'ss of exon 7
ATGGGGAAAGATGTTGTATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgta-atttggcttctgaattccctgtccattat-gatgagtaaaa-----tttagtttgttta-tgactttagatctcttcaaaatgcag
|||||||| |||||||| ||||| || || ||||| || ||||| ||||||||||| || ||||||||   |||   ||     |  | |||     || |||   ||||        ||   |||||  | |||  |  | |  |  | ||||||
ATGGGGAAGGATGTTGTGTCATTCTTAACTTGGGCCGCCGAACCCGAGATGGAAGAGAGAAAACTGgtctgtttcttttgctgctatcatgtttccaatagatcgataaagacacgcatatcctgttttctaactacacttgttatgcatatgcag

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT5G40810.2 (Arabidopsis thaliana), 5'ss of exon 6
ATGGGGAAAGATGTTGTATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggcttctgaattccctgtccattatgatgagtaaaatttagtttgtttatgactttagatctcttcaaaatgcag------------------------
||||| |||||||||||||| || ||| | |||||||| ||||||||||||||||| |||||| ||||||    | |||| | || | | |     ||| |   |||  | | ||||   ||||        |    |   |||                            
ATGGGTAAAGATGTTGTATCCTTCTTGTCCTGGGCAGCTGAACCAGAGATGGAAGAGAGGAAATTGgtaa----gtttcttagtttcatatattccatgttt--taagctgtcgtttccatatgtacgagattgcaataggaatatcaatctggattctgattatttgattt

upper sequence: Vv14s0171g00330.t01 (Vitis vinifera), 5'ss of exon 7
lower sequence: AT3G27240.1 (Arabidopsis thaliana), 5'ss of exon 7
ATGGGGAAAGATGTTGTATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttgg--cttctgaattccctgtccattatgatgagtaaaatttagtttgttta--tgactttagatctc-ttcaaaatgcag-------------
||||| |||||| |||||||||| ||| | |||||||| |||||||| |||||||| ||||||||||||  ||     ||||   ||| |||   |  ||  |   |      |||  | |  |  | |   ||||| |  || |  ||  |              
ATGGGTAAAGATATTGTATCATTCTTGGCCTGGGCAGCTGAACCAGAAATGGAAGAGAGGAAACTGgtaggtttatctttctctgttcgctggtgaacattgtattttctccctagactatgcaattaatactagatttagtttatgatcgatcaagttgacttag

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|110360731|gb|EC924064.1|EC924064
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|77587867|gb|DV223133.1|DV223133
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|27586823|gb|CB009518.1|CB009518
EST:     CAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: CAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|110696692|gb|EE073029.1|EE073029
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|110381663|gb|EC935060.1|EC935060
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|110379810|gb|EC945030.1|EC945030
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|34364199|gb|CF405784.1|CF405784
EST:     TATCATTTTTGACATGGCCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCCCTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|349807741|gb|FQ402132.1|FQ402132
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|110426281|gb|EC992684.1|EC992684
EST:     TATCATTTTTGACATGGGCAGCAGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|110428741|gb|EC995220.1|EC995220
EST:     GAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: GAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|110421251|gb|EC987546.1|EC987546
EST:     TTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|32246423|gb|CD712242.1|CD712242
EST:     CAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: CAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|71873090|gb|DT022145.1|DT022145
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|349807532|gb|FQ401947.1|FQ401947
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAAAAAGGAAACTG                         ATGGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGC
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGG-TTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGC
EST: gi|110374848|gb|EC939786.1|EC939786
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|110690901|gb|EE068387.1|EE068387
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|110379451|gb|EC944646.1|EC944646
EST:     TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
EST: gi|110708536|gb|EE086193.1|EE086193
EST:     TATCATTTTTGACATGGGCAGCAGAACCAGAGATGGAAGAAAGGAAACTG                         ATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT
genomic: TATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggc ... caaaatgcagATGGGGTTCAAATGGATATTTTTACTTTCACTGGCACTACTTCAAGCTGCT

Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
ATGGGGAAAGATGTTGTATCATTTTTGACATGGGCAGCGGAACCAGAGATGGAAGAAAGGAAACTGgtaatttggcttctgaattccctgtccattatgatgagtaaaatttagtttgtttatgactttagatctcttcaaaatgcag

- - - - - - - - - - - - - - - - - - - - - -  GAGATG
- - - - - - - - - - - - - - - - - - - - - - -  GATGGA
- - - - - - - - - - - - - - - - - - - - - - - -  TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - GGAAGA
- - - - - - - - - - - - - - - - - - - - - - - - - - AAGAAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGGAA